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The Complete Mitochondrial Genome of Littoraria ardouiniana (Heude, 1885) (Gastropoda, Littorininae): Sequence, Structure, and Phylogenetic Analyses

  • ANIMAL GENETICS
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Abstract

The genus Littoraria plays a significant role in the ecology of intertidal communities and is one of the very few molluscan groups that are closely associated with mangroves. To provide genomic resources for these species, we sequenced the complete mitochondrial genome of Littoraria ardouiniana (Heude, 1885) in this study. The results show that the complete mitogenome sequence of L. ardouiniana was circular and 16,261 bp in length, containing 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes, and 1 non-coding control region. The overall base composition of the mitogenome was 28.95% A, 34.32% T, 15.31% G, and 21.42% C, exhibiting negative AT-skew (–0.109) and GC-skew (–0.196). All PCGs are located on the heavy (H) strand and had a typical initiation codon ATG, and ended with TAA, except for nad2, which ended with T–. Phylogenetic analysis indicated that L. ardouiniana was closely related to Littoraria melanostoma, Littoraria intermedia, and Littoraria sinensis. This study first reported the complete mitochondrial genome of L. ardouiniana and provides valuable data for future molecular evolutionary and conservation studies of the genus Littoraria.

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REFERENCES

  1. Reid, D.G., The comparative morphology, phylogeny and evolution of the gastropod family Littorinidae, Phil. Trans. R. Soc. Lond. B, 1989, vol. 324, no. 1220, pp. 1–110. https://doi.org/10.1098/rstb.1989.0040

    Article  ADS  Google Scholar 

  2. Reid, D.G., The genus Littoraria Griffith and Pidgeon, 1834 (Gastropoda: Littorinidae) in the tropical eastern Pacific, Veliger, 1999, vol. 42, no. 1, pp. 21–53.

  3. Reid, D.G., Littorinid Molluscs of Mangrove Forests in the Indo-Pacific Region: The Genus Littoraria, London: British Museum (Natural History), 1986.

  4. Reid, D.G., New data on the taxonomy and distribution of the genus Littoraria Griffith and Pidgeon, 1834 (Gastropoda: Littorinidae) in Indo-west Pacific mangrove forests, Nautilus, 2001, vol. 115, pp. 115–139.

    Google Scholar 

  5. Torres, P., Alfiado, A., Glassom, D., et al., Species composition, comparative size and abundance of the genus Littoraria (Gastropoda: Littorinidae) from different mangrove strata along the east African coast, Hydrobiologia, 2008, vol. 614, no. 1, pp. 339–351.

    Article  Google Scholar 

  6. Williams, S., Reid, D.G., and Littlewood, D., A molecular phylogeny of the Littorininae (Gastropoda: Littorinidae): unequal evolutionary rates, morphological parallelism, and biogeography of the Southern Ocean, Mol. Phylogenet. Evol., 2003, vol. 28, no. 1, pp. 60–86.

    Article  CAS  PubMed  Google Scholar 

  7. Bai, J., Guo, Y., Feng, J., et al., The complete mitochondrial genome and phylogenetic analysis of Littorina brevicula (Gastropoda, Littorinidea), Mitochondrial DNA, Part B, 2020, vol. 5, no. 3, pp. 2280–2281.

    Article  PubMed  Google Scholar 

  8. Carvalho, J., Sotelo, G., Galindo, J., and Faria, R., Genetic characterization of flat periwinkles (Littorinidae) from the Iberian peninsula reveals interspecific hybridization and different degrees of differentiation, Biol. J. Linn. Soc., 2016, vol. 118, no. 3, pp. 503–519.

    Article  Google Scholar 

  9. Johannesson, K., Evolution in Littorina: ecology matters, J. Sea Res., 2003, vol. 49, no. 2, pp. 107–117.

    Article  ADS  Google Scholar 

  10. Marques, J.P., Sotelo, G., Larsson, T., et al., Comparative mitogenomic analysis of three species of periwinkles: Littorina fabalis, L. obtusata and L. saxatilis, Mar. Genomics, 2017, vol. 32, pp. 41–47.

    Article  PubMed  Google Scholar 

  11. Lee, Y., Choe, Y., Kern, E.M., et al., A revision of the genus Littorina (Mollusca: Gastropoda) in Korea, Anim. Cells Syst., 2018, vol. 22, no. 6, pp. 415–420.

    Article  CAS  Google Scholar 

  12. Li, M.Y., Li, Y.L., Xing, T.F., and Liu, J.X., First mitochondrial genome of a periwinkle from the genus Littoraria: Littoraria sinensis, Mitochondrial DNA, Part B, 2019, vol. 4, no. 2, pp. 4124–4125.

    Article  PubMed  Google Scholar 

  13. Pang, X., Fu, W., Feng, J., et al., The complete mitochondrial genome of the hermit crab Diogenes edwardsii (Anomura: Diogenidae) and phylogenetic relationships within infraorder Anomura, Genes, 2023,vol. 14, no. 2, p. 470.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  14. Boore, J.L., Animal mitochondrial genomes, Nucleic Acids Res., 1999, vol. 27, no. 8, pp. 1767–1780.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  15. Boore, J.L., Macey, J.R., and Medina, M., Sequencing and comparing whole mitochondrial genomes of animals, in Methods in Enzymology, Elsevier, 2005. vol. 395, pp. 311–348.

    Google Scholar 

  16. Wang, X., Song, Y., Xie, H., et al., Complete mitogenome of the Triplophysa bombifrons: comparative analysis and phylogenetic relationships among the members of Triplophysa, Genes, 2023, vol. 14, no. 1, p. 128.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  17. Yu, G., Lai, S., Liao, S., et al., Complete mitochondrial genome of Scolytoplatypodini species (Coleoptera: Curculionidae: Scolytinae) and phylogenetic implications, Genes, 2023, vol. 14, no. 1, p. 162.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  18. Gillett, C.P., Crampton-Platt, A., Timmermans, M.J., et al., Bulk de novo mitogenome assembly from pooled total DNA elucidates the phylogeny of Weevils (Coleoptera: Curculionoidea), Mol. Biol. Evol., 2014, vol. 31, no. 8, pp. 2223–2237.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  19. Wu, Z., Yang, T., Qin, R., and Liu, H., Complete mitogenome and phylogenetic analysis of the Carthamus tinctorius L., Genes, 2023, vol. 14, no. 5, p. 979.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  20. Reid, D.G., The littorinid molluscs of mangrove forests in the Indo-Pacific region: the genus Littoraria, International Conference on Radioactive Waste Management and Environmental Remediation Icem, 1986.

  21. Jin, J.J., Yu, W.B., Yang, J.B., et al., GetOrganelle: a fast and versatile toolkit for accurate de novo assembly of organelle genomes, Genome Biol., 2020, vol. 21, no. 1, pp. 1–31.

    Article  Google Scholar 

  22. Bernt, M., Donath, A., Jühling, F., et al., Mitos: improved de novo metazoan mitochondrial genome annotation, Mol. Phylogenet. Evol., 2013, vol. 69, no. 2, pp. 313—319.

    Article  PubMed  Google Scholar 

  23. Kumar, S., Stecher, G., and Tamura, K., MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets, Mol. Biol. Evol., 2016, vol. 33, no. 7, pp. 1870–1874. https://doi.org/10.1093/molbev/msw054

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  24. Perna, N.T. and Kocher, T.D., Patterns of nucleotide composition at fourfold degenerate sites of animal mitochondrial genomes, J. Mol. Evol., 1995, vol. 41, pp. 353–358.

    Article  CAS  PubMed  ADS  Google Scholar 

  25. Nguyen, L.T., Schmidt, H.A., Von Haeseler, A., and Minh, B.Q., IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies, Mol. Biol. Evol., 2015, vol. 32, no. 1, pp. 268–274.

    Article  CAS  PubMed  Google Scholar 

  26. Minh, B.Q., Nguyen, M.A.T., and von Haeseler, A., Ultrafast approximation for phylogenetic bootstrap, Mol. Biol. Evol., 2013, vol. 30, no. 5, pp. 1188–1195.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  27. Hamasaki, K., Iizuka, C., Sanda, T., et al., Phylogeny and phylogeography of the land hermit crab Coenobita purpureus (Decapoda: Anomura: Coenobitidae) in the Northwestern Pacific region, Mar. Ecol., 2017, vol. 38, no. 1, p. e12369.

    Article  Google Scholar 

  28. Baeza, J.A., The complete mitochondrial genome of the Caribbean spiny lobster Panulirus argus, Sci. Rep., 2018, vol. 8, no. 1, pp. 1–10.

    Article  ADS  Google Scholar 

  29. Zhang, Y., Meng, L., Wei, L., et al., Different gene rearrangements of the genus Dardanus (Anomura: Diogenidae) and insights into the phylogeny of Paguroidea, Sci. Rep., 2021, vol. 11, no. 1, pp. 1–12.

    Google Scholar 

  30. Zhongying, Q., Huihui, C., Hao, Y., et al., Comparative mitochondrial genomes of four species of Sinopodisma and phylogenetic implications (Orthoptera, Melanoplinae), ZooKeys, 2020, vol. 969, p. 23.

    Article  PubMed  PubMed Central  Google Scholar 

  31. Shan, W., Tursun, M., Zhou, S., Zhang, Y., and Dai, H., Complete mitochondrial genome sequence of Lepus yarkandensis Günther, 1875 (Lagomorpha, Leporidae): characterization and phylogenetic analysis, ZooKeys, 2021, vol. 1012, p. 135.

    Article  PubMed  PubMed Central  Google Scholar 

  32. Hurst, L.D., The Ka/Ks ratio: diagnosing the form of sequence evolution, Trends Genet., 2002, vol. 18, no. 9, pp. 486–487.

    Article  PubMed  Google Scholar 

  33. Jin, Y., Wo, Y., Tong, H., et al., Evolutionary analysis of mitochondrially encoded proteins of toad-headed lizards, Phrynocephalus, along an altitudinal gradient, BMC Genomics, 2018, vol. 19, no. 1, pp. 1–11.

    Article  Google Scholar 

  34. Ben Slimen, H., Schaschl, H., Knauer, F., and Suchentrunk, F., Selection on the mitochondrial ATP synthase 6 and the NADH dehydrogenase 2 genes in hares (Lepus capensis L., 1758) from a steep ecological gradient in North Africa, BMC Evol. Biol., 2017, vol. 17, no. 1, pp. 1–16.

    Article  Google Scholar 

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Funding

This research was funded by National Natural Science Foundation of China (42176171); Natural Science Foundation of Xiamen, China (3502Z20227252); Global climate change and ocean atmosphere interaction research II (GASI-01-NPAC-STsum); Department of Science and Technology of Fujian Province, China (2023J011373/2019N0031).

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Authors and Affiliations

  1. Key Laboratory of Marine Fishery Resources and Ecological Environment of Fujian Province, Fisheries College, Jimei University, 361021, Fujian, China

    C. Wang

  2. Schmid College of Science and Technology, Chapman University, 92866, Orange, CA, USA

    B. Xing

  3. Third Institute of Oceanography Ministry of Natural Resources, 361005, Fujian, China

    C. Wang, S. Chen, G. Chen, P. Xiang & B. Xing

  4. Xiamen Environmental Monitoring Center Station in Fujian Province, 361199, Xiamen, China

    W. Xu & Y. Tian

Authors
  1. C. Wang
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  2. S. Chen
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  3. G. Chen
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  4. P. Xiang
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  5. W. Xu
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  6. B. Xing
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  7. Y. Tian
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Correspondence to B. Xing or Y. Tian.

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The authors of this work declare that they have no conflicts of interest.

ETHICS APPROVAL AND CONSENT TO PARTICIPATE

The study protocol was approved by the Ethics Committee of the Third Institute of Oceanography Ministry of Natural Resources. Protocol No. TIO189927 dated May 10, 2021.

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Wang, C., Chen, S., Chen, G. et al. The Complete Mitochondrial Genome of Littoraria ardouiniana (Heude, 1885) (Gastropoda, Littorininae): Sequence, Structure, and Phylogenetic Analyses. Russ J Genet 60, 100–108 (2024). https://doi.org/10.1134/S1022795424010113

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